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Question: Feature Count annotation file problem
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gravatar for fatemeh.kaveh
6 weeks ago by
fatemeh.kaveh0 wrote:

Hi, I have generated my own annotation file for feature count, However I do not get any error in running but I get zero number which means none of the reads are aligned to my selected regions (created in annotation file). In IGV, I can see that reads are aligned to the selected regions. The annotation file is like this: 

GeneID   Chr   Start    End    Strand

>HLA:HLA00627   chr6  1   786  +

>HLA:HLA00629   chr6   1  769  + 

.....

 

 

ADD COMMENTlink written 6 weeks ago by fatemeh.kaveh0

Hi, you need to follow the posting guide (http://www.bioconductor.org/help/support/posting-guide/) when you ask a question. For example, you need to provide information such as versions of software tools you use, your scripts related to your question etc.

Regarding your featureCounts question, you need to provide a reproducible example otherwise we can not help you.

 

ADD REPLYlink written 5 weeks ago by Wei Shi2.7k
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